Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 70 of 349
Found at i:20665538 original size:24 final size:24
Alignment explanation
Indices: 20665511--20665578 Score: 93
Period size: 24 Copynumber: 2.8 Consensus size: 24
20665501 ATTATTATTG
* *
20665511 AAATATTCTCGTCTGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
20665535 AAATATTATTC-TCCGTTTTATTAC
1 AAATATTA-TCGTCCGTTTTATCAC
20665559 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
20665579 CCATTTAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
23 2 0.05
24 35 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.47
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:20665799 original size:15 final size:15
Alignment explanation
Indices: 20665755--20665810 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
20665745 AACGACATGT
20665755 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
20665771 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
20665784 ATATTATTTAATTAA
1 ATATTATTTAATTAA
20665799 ATATTATTTAAT
1 ATATTATTTAAT
20665811 CTCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:20665927 original size:9 final size:9
Alignment explanation
Indices: 20665915--20666139 Score: 150
Period size: 9 Copynumber: 24.6 Consensus size: 9
20665905 TATTTGATAT
*
20665915 CATAATTTA
1 CATAACTTA
20665924 CATAACTTA
1 CATAACTTA
* *
20665933 TATAACATA
1 CATAACTTA
*
20665942 TATAACTTA
1 CATAACTTA
20665951 CATAACTTA
1 CATAACTTA
* *
20665960 TATAACCTA
1 CATAACTTA
20665969 CATAACTTA
1 CATAACTTA
*
20665978 TATAACTTA
1 CATAACTTA
*
20665987 TATAACTTA
1 CATAACTTA
* *
20665996 GATAA-ATA
1 CATAACTTA
*
20666004 TATAACTTA
1 CATAACTTA
20666013 CATAACTTA
1 CATAACTTA
20666022 CATAATACTTA
1 CAT-A-ACTTA
* *
20666033 AATATATTTATA
1 CATA-A-CT-TA
*
20666045 TCATAATTTA
1 -CATAACTTA
20666055 CATAACTTA
1 CATAACTTA
20666064 CATAACTTA
1 CATAACTTA
*
20666073 TATAACTTA
1 CATAACTTA
* *
20666082 GATAA-ATA
1 CATAACTTA
* *
20666090 TATAATTTA
1 CATAACTTA
*
20666099 CATAA-ATA
1 CATAACTTA
* * *
20666107 TATATCATA
1 CATAACTTA
*
20666116 TCATAAATTA
1 -CATAACTTA
20666126 CATAACTTA
1 CATAACTTA
20666135 CATAA
1 CATAA
20666140 TACTTAAATA
Statistics
Matches: 174, Mismatches: 33, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
8 17 0.10
9 130 0.75
10 11 0.06
11 10 0.06
12 3 0.02
13 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:20665937 original size:18 final size:18
Alignment explanation
Indices: 20665915--20666139 Score: 168
Period size: 18 Copynumber: 12.3 Consensus size: 18
20665905 TATTTGATAT
* *
20665915 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
20665933 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
20665951 CATAACTTATATAACCTA
1 CATAACTTATATAACTTA
20665969 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
20665987 TATAACTTAGATAA-ATA
1 CATAACTTATATAACTTA
* *
20666004 TATAACTTACATAACTTA
1 CATAACTTATATAACTTA
**
20666022 CATAATACTTAAATATATTTATA
1 CAT-A-ACTT--ATATAACT-TA
* *
20666045 TCATAATTTACATAACTTA
1 -CATAACTTATATAACTTA
20666064 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
20666082 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
20666099 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
20666116 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
20666135 CATAA
1 CATAA
20666140 TACTTAAATA
Statistics
Matches: 164, Mismatches: 34, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
17 38 0.23
18 92 0.56
19 11 0.07
20 9 0.05
22 8 0.05
23 3 0.02
24 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:20666069 original size:77 final size:71
Alignment explanation
Indices: 20665916--20666139 Score: 182
Period size: 71 Copynumber: 3.1 Consensus size: 71
20665906 ATTTGATATC
* * * * * * * * * *
20665916 ATAATTTACATAACTTATATAACATATATAACTTACATAACTTATATAACCTA-CATAACTTATA
1 ATAACTTAGATAACATAGATAA-ATACATAACTTACATAA-ATATATATCATATCATAAATTACA
*
20665980 TAACTTAT
64 TAACTTAC
* * * *
20665988 ATAACTTAGATAA-ATATATAACTTACATAACTTACATAATACTTAAATATATTTATATCATAAT
1 ATAACTTAGATAACATAGATAA-ATACATAACTTACATAA-A--T--ATATA-TCATATCATAAA
20666052 TTACATAACTTAC
59 TTACATAACTTAC
* * * *
20666065 ATAACTTATATAACTTAGATAAATATATAATTTACATAAATATATATCATATCATAAATTACATA
1 ATAACTTAGATAACATAGATAAATACATAACTTACATAAATATATATCATATCATAAATTACATA
20666130 ACTTAC
66 ACTTAC
20666136 ATAA
1 ATAA
20666140 TACTTAAATA
Statistics
Matches: 124, Mismatches: 21, Indels: 15
0.77 0.13 0.09
Matches are distributed among these distances:
71 50 0.40
72 16 0.13
73 1 0.01
74 1 0.01
75 5 0.04
76 3 0.02
77 42 0.34
78 6 0.05
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (71 bp):
ATAACTTAGATAACATAGATAAATACATAACTTACATAAATATATATCATATCATAAATTACATA
ACTTAC
Found at i:20666127 original size:113 final size:112
Alignment explanation
Indices: 20665943--20666161 Score: 307
Period size: 113 Copynumber: 1.9 Consensus size: 112
20665933 TATAACATAT
* * *
20665943 ATAACTTACATAACTTATATAACCTACATAACTTATATAACTTATATAACTTAGATAAATATATA
1 ATAACTTACATAACTTATATAACCTACATAACATATATAACTTACATAAATTAGATAAATATATA
* *
20666008 ACTTACATAACTTACATAATACTTAAATATATTTATATCATAATTTAC
66 AATTACATAACTTACATAATACTTAAATATA-TCATATCATAATTTAC
* * * * *
20666056 ATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAA-TATATATCATATCA
1 ATAACTTACATAACTTATATAACCTACATAACATATATAACTTACATAAATTAGATA-AATAT-A
20666119 TAAATTACATAACTTACATAATACTTAAATATATCATATCATA
64 TAAATTACATAACTTACATAATACTTAAATATATCATATCATA
20666162 CATAACTAGT
Statistics
Matches: 94, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
111 5 0.05
112 27 0.29
113 62 0.66
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.38
Consensus pattern (112 bp):
ATAACTTACATAACTTATATAACCTACATAACATATATAACTTACATAAATTAGATAAATATATA
AATTACATAACTTACATAATACTTAAATATATCATATCATAATTTAC
Found at i:20666164 original size:36 final size:37
Alignment explanation
Indices: 20665943--20666168 Score: 118
Period size: 36 Copynumber: 6.2 Consensus size: 37
20665933 TATAACATAT
* * *
20665943 ATAACTTACAT-AACTTATATA-ACCTACATA-ACTTAT
1 ATAACTTACATAAACTTAAATATA-CT-CATATAATTAC
* * *
20665979 ATAACTTATAT-AACTTAGATA-AAT-ATATAACTTAC
1 ATAACTTACATAAACTTAAATATACTCATATAA-TTAC
* *
20666014 ATAACTTACATAATACTTAAATATATTTATATCATAATTTAC
1 ATAACTTACATAA-ACTTAAATATA-CT-CAT-ATAA-TTAC
* * * * *
20666056 ATAACTTACAT-AACTTATATA-ACTTAGATAAATAT
1 ATAACTTACATAAACTTAAATATACTCATATAATTAC
* *
20666091 ATAATTTACATAAA-TATATATCATA-TCATA-AATTAC
1 ATAACTTACATAAACT-TAAAT-ATACTCATATAATTAC
*
20666127 ATAACTTACATAATACTTAAATATA-TCATATCA-TAC
1 ATAACTTACATAA-ACTTAAATATACTCATATAATTAC
20666163 ATAACT
1 ATAACT
20666169 AGTTTACAAA
Statistics
Matches: 152, Mismatches: 22, Indels: 32
0.74 0.11 0.16
Matches are distributed among these distances:
33 3 0.02
34 1 0.01
35 27 0.18
36 65 0.43
37 20 0.13
38 4 0.03
39 2 0.01
40 8 0.05
41 3 0.02
42 19 0.12
ACGTcount: A:0.47, C:0.14, G:0.01, T:0.38
Consensus pattern (37 bp):
ATAACTTACATAAACTTAAATATACTCATATAATTAC
Found at i:20666187 original size:41 final size:41
Alignment explanation
Indices: 20666012--20666167 Score: 136
Period size: 36 Copynumber: 4.0 Consensus size: 41
20666002 TATATAACTT
* * *
20666012 ACATAACTTACATAATACTTAAATATATTTATATCATAATTT
1 ACATAACTTACATAATACTTAAATATA-TCATATCATAAATA
* * *
20666054 ACATAACTTACAT-A-ACTT--ATATAACTTA-GATAAAT-
1 ACATAACTTACATAATACTTAAATATATCATATCATAAATA
* * *
20666089 ATATAATTTACATAA-A--T--ATATATCATATCATAAATT
1 ACATAACTTACATAATACTTAAATATATCATATCATAAATA
*
20666125 ACATAACTTACATAATACTTAAATATATCATATCATACATA
1 ACATAACTTACATAATACTTAAATATATCATATCATAAATA
20666166 AC
1 AC
20666168 TAGTTTACAA
Statistics
Matches: 92, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
34 9 0.10
35 17 0.18
36 20 0.22
37 3 0.03
38 5 0.05
39 1 0.01
40 4 0.04
41 20 0.22
42 13 0.14
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (41 bp):
ACATAACTTACATAATACTTAAATATATCATATCATAAATA
Found at i:20671060 original size:21 final size:21
Alignment explanation
Indices: 20671027--20671077 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
20671017 ACAACTTAGA
*
20671027 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
20671048 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
20671069 GCAGAGGCA
1 GCAGAGGCA
20671078 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:20671378 original size:31 final size:31
Alignment explanation
Indices: 20671332--20671398 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
20671322 TGGTTGTATT
* *
20671332 TTTTATGTTAAATTTGGTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGGTGTATTTGGCTGCA
* * * *
20671363 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGGTGTATTTGGCTGCA
20671394 TTTTA
1 TTTTA
20671399 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.03, G:0.19, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGGTGTATTTGGCTGCA
Found at i:20671497 original size:43 final size:43
Alignment explanation
Indices: 20671467--20671607 Score: 201
Period size: 43 Copynumber: 3.2 Consensus size: 43
20671457 GCGTTTGTAA
*
20671467 AAAAAGCGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTCCC
1 AAAAA-CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCC
* *
20671511 AAAAACGTCGGTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCC
1 AAAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCC
* * *
20671554 ACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTTTTCC
1 AAAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCG-CTTTTCCC
20671598 AATAAACGCC
1 AA-AAACGCC
20671608 ACAAATTTTT
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
43 67 0.78
44 12 0.14
45 7 0.08
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (43 bp):
AAAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCC
Found at i:20671810 original size:15 final size:15
Alignment explanation
Indices: 20671790--20671862 Score: 58
Period size: 15 Copynumber: 4.7 Consensus size: 15
20671780 AAAAATAGTA
20671790 TAAAAAATAAAATAC
1 TAAAAAATAAAATAC
*** *
20671805 TAAAAAATATCTTAA
1 TAAAAAATAAAATAC
20671820 TGAAAAAATAAAATA-
1 T-AAAAAATAAAATAC
20671835 TGAAAAGAAATAAAATAC
1 T--AAA-AAATAAAATAC
*
20671853 AAAAAAATAA
1 TAAAAAATAA
20671863 TTTTTTTAGG
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
15 19 0.42
16 16 0.36
17 10 0.22
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (15 bp):
TAAAAAATAAAATAC
Found at i:20672082 original size:152 final size:149
Alignment explanation
Indices: 20671897--20672411 Score: 717
Period size: 149 Copynumber: 3.5 Consensus size: 149
20671887 CGGGTTTTTT
20671897 TACTAAAA-AA-AT-AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAACT
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAA--
* *
20671959 TAAAAAAATACAAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAA
64 TAAAAAAATACAAACAAA-GGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAA
* * *
20672024 ATAATAAATTTAAAATACTATG
128 ATAATAAATTTGAAACATTATG
* **
20672046 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAGATAAAATCTGAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATA
* * *
20672111 AAAAAATAACAAA-AAATGCCAAAATCAAGGTTATTTATTAAATTAATATAAAAAACACTTAAAC
66 AAAAAAT-ACAAACAAAGGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAAT
*
20672175 AATACATTTGAAACATTATG
130 AATAAATTTGAAACATTATG
*
20672195 TACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATGAAATCCAAAAAT
1 TACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAAT
* *
20672260 AAAAAAATTATC-AACAAATGGCCAAAATCAGAGTTATTTATTAAATTAATAT-AAAAACAATTA
65 AAAAAAA-TA-CAAACAAA-GGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTA
*
20672323 AATAATATATTTGAAACATTATG
127 AATAATAAATTTGAAACATTATG
* *
20672346 TACTAAAATAATA-AAAAAAT-AAATA-TAAAATAAGTATATTTTAAAAAATAAAATCCGAAAA-
1 TACTAAAATAATATAAAAAATAAAATACGAAAAT-AGTATATTTTAAAAAATAAAATCCAAAAAT
20672407 AAAAA
65 AAAAA
20672412 CCAACAAAGG
Statistics
Matches: 331, Mismatches: 25, Indels: 22
0.88 0.07 0.06
Matches are distributed among these distances:
147 10 0.03
148 32 0.10
149 88 0.27
150 70 0.21
151 56 0.17
152 75 0.23
ACGTcount: A:0.60, C:0.08, G:0.06, T:0.27
Consensus pattern (149 bp):
TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATA
AAAAAATACAAACAAAGGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATA
ATAAATTTGAAACATTATG
Found at i:20675690 original size:15 final size:15
Alignment explanation
Indices: 20675670--20675785 Score: 62
Period size: 15 Copynumber: 7.5 Consensus size: 15
20675660 GTCTGCTTTA
20675670 TGTTTCTCTATTTTC
1 TGTTTCTCTATTTTC
*
20675685 TGTTTCTGTACCATGTTT-
1 TGTTTC--T-CTAT-TTTC
20675703 TGTTTCTCTATTTTC
1 TGTTTCTCTATTTTC
*
20675718 TGTTTCTGTACCATGTTT-
1 TGTTTC--T-CTAT-TTTC
*
20675736 TGTTCCTCTATTTTC
1 TGTTTCTCTATTTTC
* **
20675751 TGTAGT-GGT-TTTT-
1 TGT-TTCTCTATTTTC
20675764 TGTTTCTCTATTTTC
1 TGTTTCTCTATTTTC
20675779 TGTTTCT
1 TGTTTCT
20675786 GTACCATGTT
Statistics
Matches: 75, Mismatches: 12, Indels: 28
0.65 0.10 0.24
Matches are distributed among these distances:
12 1 0.01
13 4 0.05
14 14 0.19
15 29 0.39
16 2 0.03
17 2 0.03
18 17 0.23
19 6 0.08
ACGTcount: A:0.08, C:0.17, G:0.13, T:0.62
Consensus pattern (15 bp):
TGTTTCTCTATTTTC
Found at i:20675707 original size:33 final size:33
Alignment explanation
Indices: 20675670--20675805 Score: 185
Period size: 33 Copynumber: 4.3 Consensus size: 33
20675660 GTCTGCTTTA
20675670 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
1 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
20675703 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
1 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
* * *
20675736 TGTTCCTCTATTTTCTGTAGT-GGT----T-TTT
1 TGTTTCTCTATTTTCTGT-TTCTGTACCATGTTT
20675764 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
1 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
*
20675797 TGTTCCTCT
1 TGTTTCTCT
20675806 TGCCATTTTT
Statistics
Matches: 89, Mismatches: 7, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
27 1 0.01
28 22 0.25
29 1 0.01
32 1 0.01
33 63 0.71
34 1 0.01
ACGTcount: A:0.08, C:0.18, G:0.13, T:0.60
Consensus pattern (33 bp):
TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
Found at i:20675708 original size:18 final size:18
Alignment explanation
Indices: 20675685--20675739 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
20675675 CTCTATTTTC
20675685 TGTTTCTGTACCATGTTT
1 TGTTTCTGTACCATGTTT
*
20675703 TGTTTC--T-CTAT-TTT
1 TGTTTCTGTACCATGTTT
20675717 CTGTTTCTGTACCATGTTT
1 -TGTTTCTGTACCATGTTT
20675736 TGTT
1 TGTT
20675740 CCTCTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 3 0.10
15 9 0.30
16 1 0.03
17 1 0.03
18 13 0.43
19 3 0.10
ACGTcount: A:0.09, C:0.16, G:0.15, T:0.60
Consensus pattern (18 bp):
TGTTTCTGTACCATGTTT
Found at i:20676903 original size:21 final size:22
Alignment explanation
Indices: 20676877--20676932 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 22
20676867 AGTTTCCCCC
20676877 GTTTGCAGTGGCTATACAA-TT
1 GTTTGCAGTGGCTATACAATTT
*
20676898 GTTTGCAGTGGCTATATAATTT
1 GTTTGCAGTGGCTATACAATTT
*
20676920 ATTTGCAGTGGCT
1 GTTTGCAGTGGCT
20676933 CCATCTGCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 18 0.56
22 14 0.44
ACGTcount: A:0.21, C:0.12, G:0.25, T:0.41
Consensus pattern (22 bp):
GTTTGCAGTGGCTATACAATTT
Found at i:20680112 original size:18 final size:17
Alignment explanation
Indices: 20680084--20680118 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
20680074 ATTATTAAGA
*
20680084 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
20680101 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
20680119 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:20680139 original size:120 final size:120
Alignment explanation
Indices: 20679993--20680495 Score: 988
Period size: 120 Copynumber: 4.2 Consensus size: 120
20679983 TTTTCAAGTT
*
20679993 ATATATTTAATAATTATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
20680058 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
20680113 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTTAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
20680178 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
20680233 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
20680298 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
20680353 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
20680418 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
20680473 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
20680496 TAAATATGAT
Statistics
Matches: 380, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 380 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:20680232 original size:18 final size:17
Alignment explanation
Indices: 20680204--20680238 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
20680194 ATTATTAAGA
*
20680204 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
20680221 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
20680239 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:20680352 original size:18 final size:17
Alignment explanation
Indices: 20680324--20680358 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
20680314 ATTATTAAGA
*
20680324 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
20680341 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
20680359 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:20680472 original size:18 final size:17
Alignment explanation
Indices: 20680444--20680478 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
20680434 ATTATTAAGA
*
20680444 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
20680461 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
20680479 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:20680735 original size:16 final size:16
Alignment explanation
Indices: 20680714--20680781 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
20680704 GATTTGCTAT
20680714 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
20680730 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
20680746 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
20680762 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
20680778 TACA
1 TACA
20680782 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:20684244 original size:24 final size:23
Alignment explanation
Indices: 20684200--20684244 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
20684190 TATAAAAAAT
**
20684200 AATTATATTAAGAATTGTTATTA
1 AATTATATTAAGAATAATTATTA
*
20684223 AATTATATTTAATAATAATTAT
1 AATTATA-TTAAGAATAATTAT
20684245 ATTAAAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 7 0.39
24 11 0.61
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
AATTATATTAAGAATAATTATTA
Found at i:20684501 original size:16 final size:16
Alignment explanation
Indices: 20684465--20684531 Score: 91
Period size: 16 Copynumber: 4.2 Consensus size: 16
20684455 TGAATTACTT
*
20684465 ATTACAGTCCTATTCTC
1 ATTACAGCCCTATTC-C
20684482 -TTACAGCCCTATTCC
1 ATTACAGCCCTATTCC
* *
20684497 ATTACAACTCTATTCC
1 ATTACAGCCCTATTCC
20684513 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCC
20684529 ATT
1 ATT
20684532 CCAGTGAACC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
15 1 0.02
16 43 0.98
ACGTcount: A:0.25, C:0.33, G:0.04, T:0.37
Consensus pattern (16 bp):
ATTACAGCCCTATTCC
Found at i:20684681 original size:26 final size:26
Alignment explanation
Indices: 20684599--20684682 Score: 71
Period size: 26 Copynumber: 3.1 Consensus size: 26
20684589 GGAACAAACT
* *
20684599 TTAAATACATTACAATATTAATCTAA
1 TTAAATACATTACAACATTAACCTAA
* * *
20684625 TTAAATAAATTA-ATCTAATTGGAACATTAA
1 TTAAATACATTACAAC--ATT--AAC-CTAA
20684655 TTAAATACATTACAACATTAACCTAA
1 TTAAATACATTACAACATTAACCTAA
20684681 TT
1 TT
20684683 GGAACAAACT
Statistics
Matches: 44, Mismatches: 8, Indels: 12
0.69 0.12 0.19
Matches are distributed among these distances:
25 1 0.02
26 16 0.36
27 6 0.14
29 5 0.11
30 14 0.32
31 2 0.05
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (26 bp):
TTAAATACATTACAACATTAACCTAA
Found at i:20687626 original size:13 final size:13
Alignment explanation
Indices: 20687608--20687646 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
20687598 TTTTAGTTAC
20687608 TAATAATATATTA
1 TAATAATATATTA
*
20687621 TAATAATTTATTTA
1 TAATAATATA-TTA
20687635 TATATAATATAT
1 TA-ATAATATAT
20687647 AAATATTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 9 0.41
14 6 0.27
15 7 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TAATAATATATTA
Found at i:20691282 original size:27 final size:27
Alignment explanation
Indices: 20691242--20691302 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
20691232 CAACTGGTGT
* *
20691242 TGCCTCTGACAGAGACTTCATCAGTGC
1 TGCCTCTGACAGAGACTTCACCAATGC
*
20691269 TGCCTCTG-CTAGAGGCTTCACCAATGC
1 TGCCTCTGAC-AGAGACTTCACCAATGC
*
20691296 CGCCTCT
1 TGCCTCT
20691303 AGCACATCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.18, C:0.34, G:0.21, T:0.26
Consensus pattern (27 bp):
TGCCTCTGACAGAGACTTCACCAATGC
Found at i:20691773 original size:33 final size:33
Alignment explanation
Indices: 20691707--20691773 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
20691697 AAAAGTTTAA
**
20691707 TTATTATTTAATATAAAATAATTTATACGTATT
1 TTATTATTTAATATAAAATAATTTATAAATATT
* *
20691740 TTATTATTTATTATGAATATAATTTA-AAATATT
1 TTATTATTTAATAT-AAAATAATTTATAAATATT
20691773 T
1 T
20691774 AAATTTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 19 0.66
34 10 0.34
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (33 bp):
TTATTATTTAATATAAAATAATTTATAAATATT
Found at i:20691881 original size:24 final size:23
Alignment explanation
Indices: 20691848--20691896 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
20691838 AGGTTATATT
20691848 ATTTAATATTAATATTAATATAA
1 ATTTAATATTAATATTAATATAA
* * *
20691871 ATTTAATTATTTATTTTATTATAA
1 ATTTAA-TATTAATATTAATATAA
20691895 AT
1 AT
20691897 ACATTGTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTAATATTAATATTAATATAA
Found at i:20701475 original size:15 final size:15
Alignment explanation
Indices: 20701455--20701490 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
20701445 CTCGGTAGGA
*
20701455 GCTATTTTGTAAGGT
1 GCTATTATGTAAGGT
20701470 GCTATTATGTAAGGT
1 GCTATTATGTAAGGT
20701485 GCTATT
1 GCTATT
20701491 GATATCGGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.22, C:0.08, G:0.25, T:0.44
Consensus pattern (15 bp):
GCTATTATGTAAGGT
Found at i:20705119 original size:25 final size:25
Alignment explanation
Indices: 20705091--20705138 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
20705081 CTGTGAATCA
*
20705091 GTATGCTCTCTCGAGTTGTAAATTG
1 GTATGCTCTCACGAGTTGTAAATTG
*
20705116 GTATGGTCTCACGAGTTGTAAAT
1 GTATGCTCTCACGAGTTGTAAAT
20705139 CGATAAGCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.38
Consensus pattern (25 bp):
GTATGCTCTCACGAGTTGTAAATTG
Found at i:20708367 original size:36 final size:37
Alignment explanation
Indices: 20708320--20708392 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
20708310 CATTTGGCAC
20708320 GCTTAAATACC-AGTCTTTCAAAGAACCAATCCCAGA
1 GCTTAAATACCAAGTCTTTCAAAGAACCAATCCCAGA
20708356 GCTTAAATACCAAGTCTTTCAAAGAACCAATCCCAGA
1 GCTTAAATACCAAGTCTTTCAAAGAACCAATCCCAGA
20708393 CATACACTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 11 0.31
37 25 0.69
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.22
Consensus pattern (37 bp):
GCTTAAATACCAAGTCTTTCAAAGAACCAATCCCAGA
Found at i:20708728 original size:82 final size:82
Alignment explanation
Indices: 20708627--20708877 Score: 344
Period size: 82 Copynumber: 3.0 Consensus size: 82
20708617 AAAACTATCT
* * * * *
20708627 AATTAAATCTTATTTGGAAACAAAAACAAAATTGAATAAAATCTGTTAAACGACAAGAATAAATT
1 AATTAATTCTCATTTGGAAACAAAAACAAAATCGAATAAAATCTGTTAAACGACAGGAATAAATC
20708692 CCAAAACAGAATTATTC
66 CCAAAACAGAATTATTC
* * * *
20708709 AATTAATTCTCATTTGGAAACAAAATCAAAGTCGAATAAAATCTGTGAAATGA-AGGGAATAAAT
1 AATTAATTCTCATTTGGAAACAAAAACAAAATCGAATAAAATCTGTTAAACGACA-GGAATAAAT
*
20708773 CCCGAAACAGAATTATTC
65 CCCAAAACAGAATTATTC
* *
20708791 AATTAATTCTCATTTGGAAACAAAATA-AAAATGGAATAAAATCTGTTAAACGGCAGGAATAAAT
1 AATTAATTCTCATTTGGAAACAAAA-ACAAAATCGAATAAAATCTGTTAAACGACAGGAATAAAT
*
20708855 CCCAAAACAGATTTTATTC
65 CCCAAAACAGA-ATTATTC
20708874 AATT
1 AATT
20708878 TTAATTTTTA
Statistics
Matches: 147, Mismatches: 18, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
81 1 0.01
82 135 0.92
83 11 0.07
ACGTcount: A:0.49, C:0.13, G:0.12, T:0.27
Consensus pattern (82 bp):
AATTAATTCTCATTTGGAAACAAAAACAAAATCGAATAAAATCTGTTAAACGACAGGAATAAATC
CCAAAACAGAATTATTC
Found at i:20711606 original size:25 final size:25
Alignment explanation
Indices: 20711578--20711629 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
20711568 AGGAACCTTT
*
20711578 AAATCAATTTGAATAAAATAAAATC
1 AAATCAATTGGAATAAAATAAAATC
** * *
20711603 AAATTGATTGGAATCAAATTAAATC
1 AAATCAATTGGAATAAAATAAAATC
20711628 AA
1 AA
20711630 GATATATGTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.29
Consensus pattern (25 bp):
AAATCAATTGGAATAAAATAAAATC
Found at i:20712612 original size:22 final size:21
Alignment explanation
Indices: 20712582--20712622 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
20712572 TAACATTAAT
20712582 ATAACTTTAATATATAATTTCA
1 ATAACTTTAAT-TATAATTTCA
* *
20712604 ATAATTTTAATTATTATTT
1 ATAACTTTAATTATAATTT
20712623 AAAGTTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
ATAACTTTAATTATAATTTCA
Found at i:20714858 original size:22 final size:22
Alignment explanation
Indices: 20714833--20714910 Score: 95
Period size: 22 Copynumber: 3.5 Consensus size: 22
20714823 TTCACTATGG
* *
20714833 TGCCTACTGATTCGTATTACGA
1 TGCCTACTGATTCGCATTAAGA
* *
20714855 TGCCTATTGTTTCGCATTATA-A
1 TGCCTACTGATTCGCATTA-AGA
20714877 TGCCTACTGATTCGCATTAAGA
1 TGCCTACTGATTCGCATTAAGA
*
20714899 TGCCTATTGATT
1 TGCCTACTGATT
20714911 TGCAGTTCGA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
21 1 0.02
22 46 0.98
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.40
Consensus pattern (22 bp):
TGCCTACTGATTCGCATTAAGA
Found at i:20722135 original size:19 final size:19
Alignment explanation
Indices: 20722110--20722200 Score: 125
Period size: 19 Copynumber: 4.9 Consensus size: 19
20722100 ATAATCTTCA
*
20722110 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
20722129 GTGATATGCAATCTTAGAG
1 ATGATATGCAATCTTAGAT
20722148 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
20722166 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
20722183 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
20722201 AGATATGATT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
17 17 0.27
18 17 0.27
19 30 0.47
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:20722205 original size:17 final size:16
Alignment explanation
Indices: 20722131--20722206 Score: 62
Period size: 18 Copynumber: 4.3 Consensus size: 16
20722121 TCTTAGATGT
*
20722131 GATATGCAATCTTAGA
1 GATATACAATCTTAGA
*
20722147 GATGATTGCAATCTTAGA
1 GAT-A-TACAATCTTAGA
*
20722165 TATGATACAATCTTAGATA
1 GAT-ATACAATCTTAG--A
20722184 TGATATACAATCTTAGAA
1 -GATATACAATCTTAG-A
20722202 GATAT
1 GATAT
20722207 GATTTTGTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
16 3 0.06
17 16 0.31
18 17 0.33
19 13 0.25
20 2 0.04
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (16 bp):
GATATACAATCTTAGA
Found at i:20722705 original size:17 final size:16
Alignment explanation
Indices: 20722685--20722743 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 16
20722675 CCAATATATT
20722685 TTATATTTTTTATATAA
1 TTAT-TTTTTTATATAA
*
20722702 TTATTATTCTTATA-AA
1 TTATT-TTTTTATATAA
20722718 -TATTTTTTTATTATATA
1 TTATTTTTTTA-TATA-A
20722735 TTATATTTT
1 TTAT-TTTT
20722744 AAATTTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 5 0.15
15 6 0.18
16 4 0.12
17 12 0.35
18 3 0.09
19 4 0.12
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATTTTTTTATATAA
Found at i:20722744 original size:17 final size:17
Alignment explanation
Indices: 20722679--20722744 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 17
20722669 TCTAAACCAA
*
20722679 TATATTTTATATTTT-T
1 TATATATTATATTTTAT
20722695 TATATAATTATTATTCTTA-
1 TATAT-ATTA-TATT-TTAT
*
20722714 TAAATATT-T-TTTTAT
1 TATATATTATATTTTAT
20722729 TATATATTATATTTTA
1 TATATATTATATTTTA
20722745 AATTTATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 13
0.71 0.05 0.23
Matches are distributed among these distances:
14 3 0.08
15 9 0.22
16 7 0.17
17 8 0.20
18 7 0.17
19 6 0.15
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TATATATTATATTTTAT
Found at i:20740448 original size:48 final size:48
Alignment explanation
Indices: 20740383--20740511 Score: 181
Period size: 48 Copynumber: 2.7 Consensus size: 48
20740373 CGGCTATATT
* *
20740383 ACGAGAACCAGTGTAAGACCATAAT-TGGGACATGGCATTGGCATTGAG
1 ACGAGAGCTAGTGTAAGACCAT-ATCTGGGACATGGCATTGGCATTGAG
* *
20740431 ACGTGAGTTAGTGTAAGACCATATCTGGGACATGGCATTGGCATTGAG
1 ACGAGAGCTAGTGTAAGACCATATCTGGGACATGGCATTGGCATTGAG
* *
20740479 ACGAGAGCTAGTGTAGGA-CATGTCTGGGACATG
1 ACGAGAGCTAGTGTAAGACCATATCTGGGACATG
20740512 CATCGGCCTC
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
47 16 0.22
48 56 0.78
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (48 bp):
ACGAGAGCTAGTGTAAGACCATATCTGGGACATGGCATTGGCATTGAG
Found at i:20740545 original size:46 final size:44
Alignment explanation
Indices: 20740488--20740649 Score: 152
Period size: 46 Copynumber: 3.6 Consensus size: 44
20740478 GACGAGAGCT
* *
20740488 AGTGTAGGA-CATGTCTGGGACATGCATCGGCCTCGAGATGTACGTC
1 AGTGTAAGACCATGTCTAGGACATGCATCGG-CTC-AGATGTA-GTC
20740534 AGTGTAAGA-CATGTCTAGGACATGCATCGGCTACATGATGT-GTC
1 AGTGTAAGACCATGTCTAGGACATGCATCGGCT-CA-GATGTAGTC
* * * *
20740578 AGTATAAGACCATGTCTAAGACATGACATCGACTCA-ACGTGAGAGTC
1 AGTGTAAGACCATGTCTAGGACATG-CATCGGCTCAGA--TG-TAGTC
*
20740625 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTAGGACATG
20740650 GTGTTGACTT
Statistics
Matches: 99, Mismatches: 9, Indels: 15
0.80 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 11 0.11
45 21 0.21
46 41 0.41
47 25 0.25
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACCATGTCTAGGACATGCATCGGCTCAGATGTAGTC
Found at i:20740636 original size:47 final size:46
Alignment explanation
Indices: 20740531--20740702 Score: 179
Period size: 47 Copynumber: 3.7 Consensus size: 46
20740521 CGAGATGTAC
* * *
20740531 GTCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCT-ACATGATGT
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGACTAACGTGA-GA
* * *
20740575 GTCAGTATAAGACCATGTCTAAGACATGACATCGACTCAACGTGAGA
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGACT-AACGTGAGA
* ** * *
20740622 GTCAGTGTAAGACCATGTCTGGGACATGGTGTTGACTTAGCGTGAGA
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGAC-TAACGTGAGA
* *
20740669 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCG
20740703 GCATTATACC
Statistics
Matches: 105, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
44 11 0.10
45 13 0.12
46 7 0.07
47 68 0.65
48 6 0.06
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
GTCAGTGTAAGACCATGTCTAGGACATGGCATCGACTAACGTGAGA
Found at i:20743895 original size:25 final size:25
Alignment explanation
Indices: 20743867--20743947 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 25
20743857 AGCTCTTATA
* *
20743867 AGCTTCCCGATACTTAGCTCGCATG
1 AGCTTCCCGATACTTAACTCACATG
*
20743892 AGCTT-TCGATACTTAACTCACATG
1 AGCTTCCCGATACTTAACTCACATG
*
20743916 AGCTTCCCGTTA-TTCAACTCACATG
1 AGCTTCCCGATACTT-AACTCACATG
20743941 AGCTTCC
1 AGCTTCC
20743948 TATTATTTAG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 23 0.47
25 26 0.53
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (25 bp):
AGCTTCCCGATACTTAACTCACATG
Found at i:20743906 original size:24 final size:24
Alignment explanation
Indices: 20743874--20743945 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
20743864 ATAAGCTTCC
* *
20743874 CGATACTTAGCTCGCATGAGCTTT
1 CGATACTTAACTCACATGAGCTTT
*
20743898 CGATACTTAACTCACATGAGCTTCC
1 CGATACTTAACTCACATGAGCTT-T
*
20743923 CGTTA-TTCAACTCACATGAGCTT
1 CGATACTT-AACTCACATGAGCTT
20743946 CCTATTATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
24 23 0.55
25 19 0.45
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (24 bp):
CGATACTTAACTCACATGAGCTTT
Found at i:20743953 original size:25 final size:25
Alignment explanation
Indices: 20743906--20743954 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
20743896 TTCGATACTT
*
20743906 AACTCACATGAGCTTCCCGTTATTC
1 AACTCACATGAGCTTCCCATTATTC
*
20743931 AACTCACATGAGCTTCCTATTATT
1 AACTCACATGAGCTTCCCATTATT
20743955 TAGCTCGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.35
Consensus pattern (25 bp):
AACTCACATGAGCTTCCCATTATTC
Found at i:20746501 original size:64 final size:64
Alignment explanation
Indices: 20746400--20746528 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
20746390 TGTGACCATC
20746400 TTATAGATGCATCTATCAAAACCATAAAATATATAAATGGTTCATATGGTGGATGAATGGGCTA
1 TTATAGATGCATCTATCAAAACCATAAAATATATAAATGGTTCATATGGTGGATGAATGGGCTA
20746464 TTATAGATGCATCTATCAAAACCATAAAATATATAAATGGTTCATATGGTGGATGAATGGGCTA
1 TTATAGATGCATCTATCAAAACCATAAAATATATAAATGGTTCATATGGTGGATGAATGGGCTA
20746528 T
1 T
20746529 CATATATCAC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.32
Consensus pattern (64 bp):
TTATAGATGCATCTATCAAAACCATAAAATATATAAATGGTTCATATGGTGGATGAATGGGCTA
Found at i:20762759 original size:44 final size:44
Alignment explanation
Indices: 20762364--20762768 Score: 282
Period size: 44 Copynumber: 9.0 Consensus size: 44
20762354 TATCGTAGCG
* * *
20762364 AATCTTATCTC-CTTAAAGTTGCAGTGGAGTAGATTAAAGTTACA
1 AATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * *
20762408 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAAAA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCT-ACA
* * * * *
20762453 AATCTTATCTCCCTGAAGTTGTACTGGAGCAGATTGAAGATATCA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CA
* * * *
20762498 AATCTTATCTCTCTGAAATTGCAATAGAGCAGATTGAAGCTACA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * *
20762542 AATCTTATTTCGT-TGAAGTTGCAATGGAGCAGATTGAAGCTACA
1 AATCTTATCTC-TCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* ** * * * * **
20762586 AGTCTTATCTCGT-TGAAGTTGCAGTAAAGCAAACTAAATCAATG
1 AATCTTATCTC-TCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * *
20762630 AATCCTATGC-CTCCGAAGTTGCAG-GGGGTTAGATTAAATCTACCGTA
1 AATCTTAT-CTCTCTGAAGTTGCAGTGGAG-CAGATTAAAGCTA-C--A
* ** * *
20762677 ATGAGTCTTATCTC-CTTGAAGTTACAGCAGAACTGATTAAAGCTACA
1 A--A-TCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * *
20762724 AATCTTATCTCTCTAAAGTTGCAGTGGAGTAGATTAAAACTACA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
20762768 A
1 A
20762769 TTCCTATACC
Statistics
Matches: 286, Mismatches: 58, Indels: 34
0.76 0.15 0.09
Matches are distributed among these distances:
43 2 0.01
44 169 0.59
45 82 0.29
47 3 0.01
49 4 0.01
50 25 0.09
51 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
Found at i:20765354 original size:49 final size:49
Alignment explanation
Indices: 20765295--20765608 Score: 289
Period size: 49 Copynumber: 6.7 Consensus size: 49
20765285 CATCAAATTC
* * *
20765295 GATGCCATGTCCCAAACAGGTCTTACACTAGCTTTCATATATCGAGGCT
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCT
*
20765344 GATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATATATCG-GTG-T
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAG-GCT
* * * * *
20765392 CGATGCCATGTCCCAGACAGGTCTTACACT-G-ACACACA-A-C-AAGCT
1 -GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCT
* * * *
20765437 GATGCCATGTCCCAGACAGGTCTTACACTAGCT-TGTATATCTCGAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCT-CATATATCGAGGCT
* * * * * *
20765486 GATG-CATGTCCCATACATGTCTTACACTAGCTCTC--GTCTCAATGCC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCT
* *
20765532 GATG-CATGTCCCAGACATGTCTTACACTTGCTCTCATA-AT-GTGGCT
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCT
* *
20765578 GATG-CATGTCTCAAACATGTCTTACACTAGC
1 GATGCCATGTCCCAGACATGTCTTACACTAGC
20765609 ACACATATCA
Statistics
Matches: 219, Mismatches: 33, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
44 30 0.14
45 3 0.01
46 74 0.34
47 5 0.02
48 30 0.14
49 77 0.35
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCT
Found at i:20765464 original size:93 final size:96
Alignment explanation
Indices: 20765250--20765617 Score: 295
Period size: 92 Copynumber: 3.9 Consensus size: 96
20765240 AGATGCCGAC
* * **
20765250 GCCATGTCCCAGACATGGTCTTACACTGGC-T-AGCACATCAAAT-TCGATGCCATGTCCCAAAC
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTTCA-TATATC-GGTGTCGATGCCATGTCCCAAAC
* * *
20765312 AGGTCTTACACTAGCTTTCATATATCGAGGCTGAT
63 AGGTCTTACACTAGC-TACACATATCGAAGCTGAT
* *
20765347 GCCATGTCCCAGACATGTCTTACACTGGCTCTCATATATCGGTGTCGATGCCATGTCCCAGACAG
1 GCCATGTCCCAGACAGGTCTTACACTGGCT-TCATATATCGGTGTCGATGCCATGTCCCAAACAG
20765412 GTCTTACACT-GAC-ACACA-A-C-AAGCTGAT
65 GTCTTACACTAG-CTACACATATCGAAGCTGAT
* * * * *
20765440 GCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAG-GCCGATG-CATGTCCCATACA
1 GCCATGTCCCAGACAGGTCTTACACTGGCTT-CATATATCG-GTGTCGATGCCATGTCCCAAACA
* * * * *
20765503 TGTCTTACACTAGCT-CTCGTCTC-AATGCCGAT
64 GGTCTTACACTAGCTACACATATCGAA-GCTGAT
* * * *
20765535 G-CATGTCCCAGACATGTCTTACACTTGCTCTCATA-AT--GTGGCTGATG-CATGTCTCAAACA
1 GCCATGTCCCAGACAGGTCTTACACTGGCT-TCATATATCGGTGTC-GATGCCATGTCCCAAACA
*
20765595 TGTCTTACACTAGC-ACACATATC
64 GGTCTTACACTAGCTACACATATC
20765618 ACCCAATGTC
Statistics
Matches: 225, Mismatches: 30, Indels: 37
0.77 0.10 0.13
Matches are distributed among these distances:
90 1 0.00
91 2 0.01
92 60 0.27
93 50 0.22
94 34 0.15
95 8 0.04
96 16 0.07
97 17 0.08
98 36 0.16
99 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (96 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTTCATATATCGGTGTCGATGCCATGTCCCAAACAGG
TCTTACACTAGCTACACATATCGAAGCTGAT
Found at i:20765550 original size:46 final size:47
Alignment explanation
Indices: 20765242--20765618 Score: 263
Period size: 49 Copynumber: 8.0 Consensus size: 47
20765232 ATGGGATAAG
* * ** *
20765242 ATGCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAA
1 ATGCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATATC-A
* * * * *
20765291 AT-TCGATGCCATGTCCCAAACAGGTCTTACACTAGCTTTCATATATCG
1 ATGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTC--ATATCA
* * * *
20765339 AGGCTGATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATATATCG
1 ATGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTC--ATATCA
* * * * *
20765388 GTGTCGATGCCATGTCCCAGACAGGTCTTACACT-GACACACA-A-CA
1 ATGCCGATGCCATGTCCCAGACATGTCTTACACTAG-CTCTCATATCA
* * * *
20765433 A-GCTGATGCCATGTCCCAGACAGGTCTTACACTAGCT-TGTATATCTCG
1 ATGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCT-CATA--TCA
* * * *
20765481 AGGCCGATG-CATGTCCCATACATGTCTTACACTAGCTCTCGTCTCA
1 ATGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATCA
*
20765527 ATGCCGATG-CATGTCCCAGACATGTCTTACACTTGCTCTCATA--A
1 ATGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATCA
* * * * * *
20765571 TGTGGCTGATG-CATGTCTCAAACATGTCTTACACTAGCACACATATCA
1 -AT-GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATCA
20765619 CCCAATGTCA
Statistics
Matches: 262, Mismatches: 50, Indels: 33
0.76 0.14 0.10
Matches are distributed among these distances:
44 33 0.13
45 4 0.02
46 76 0.29
47 15 0.06
48 49 0.19
49 85 0.32
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (47 bp):
ATGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATCA
Found at i:20766224 original size:20 final size:20
Alignment explanation
Indices: 20766199--20766237 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
20766189 GAAATTTCAA
20766199 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
20766219 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
20766238 AATAACCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:20767578 original size:20 final size:20
Alignment explanation
Indices: 20767553--20767592 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
20767543 AAAGGTTTTT
20767553 TTATTTTTTTTATTTTCAAA
1 TTATTTTTTTTATTTTCAAA
20767573 TTATTTTTTTTATTTTCAAA
1 TTATTTTTTTTATTTTCAAA
20767593 GGGCTTTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (20 bp):
TTATTTTTTTTATTTTCAAA
Found at i:20774963 original size:46 final size:46
Alignment explanation
Indices: 20774896--20774986 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
20774886 CTGGAATTCA
20774896 ATCAATAAAACGATTAATGAATTTGTTCCTTTGAAGAAAACAATGC
1 ATCAATAAAACGATTAATGAATTTGTTCCTTTGAAGAAAACAATGC
20774942 ATCAATAAAACGATTAATGAATTTGTTCCTTTGAAGAAAACAATG
1 ATCAATAAAACGATTAATGAATTTGTTCCTTTGAAGAAAACAATG
20774987 TTAAAAGGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (46 bp):
ATCAATAAAACGATTAATGAATTTGTTCCTTTGAAGAAAACAATGC
Found at i:20776257 original size:26 final size:28
Alignment explanation
Indices: 20776215--20776277 Score: 78
Period size: 26 Copynumber: 2.3 Consensus size: 28
20776205 CAACCTGATT
20776215 AATAAAATATAAATTTAA-AGACCAACTA
1 AATAAAATATAAATTTAATA-ACCAACTA
*
20776243 AATAAAA-A-AAATTTAATAACCAATTA
1 AATAAAATATAAATTTAATAACCAACTA
20776269 AATATAAAT
1 AATA-AAAT
20776278 GAACAAAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
26 19 0.61
27 5 0.16
28 7 0.23
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (28 bp):
AATAAAATATAAATTTAATAACCAACTA
Found at i:20776627 original size:29 final size:30
Alignment explanation
Indices: 20776586--20776646 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
20776576 AATATTGAAA
*
20776586 TTATATATAAAA-TTTGATTTTATATAATT
1 TTATATATAAAATTTTGATTTGATATAATT
* *
20776615 TTATATATTAAATTTTGATTTGATTTAATT
1 TTATATATAAAATTTTGATTTGATATAATT
20776645 TT
1 TT
20776647 TAGAAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (30 bp):
TTATATATAAAATTTTGATTTGATATAATT
Found at i:20777351 original size:15 final size:17
Alignment explanation
Indices: 20777326--20777367 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
20777316 GAGTGTAAAG
20777326 AAAATTAGAA-GAGTAA
1 AAAATTAGAAGGAGTAA
*
20777342 AAAATT-GAAGGGGTAA
1 AAAATTAGAAGGAGTAA
20777358 AAAATTAGAA
1 AAAATTAGAA
20777368 AAATGGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 3 0.13
16 17 0.74
17 3 0.13
ACGTcount: A:0.60, C:0.00, G:0.21, T:0.19
Consensus pattern (17 bp):
AAAATTAGAAGGAGTAA
Found at i:20782162 original size:46 final size:44
Alignment explanation
Indices: 20782076--20782245 Score: 157
Period size: 46 Copynumber: 3.7 Consensus size: 44
20782066 CATAGCCATA
*
20782076 TCGATGCCATGTCCTAGACATGGTCTTACACTGACACATCTCGTA-G
1 TCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCG-AGG
*
20782122 TCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGG
1 TCGATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCGAGG
* * *
20782168 CCGATGTATGTCCCAGACATGTCTTACACT-AGCAC-TCGTCTGAATG
1 TCGATGCATGTCCCAGACATGTCTTACACTGA-CACATC-TC-G-AGG
* *
20782214 CCGATGCCATATCCCAGACATGGTCTTACACT
1 TCGATG-CATGTCCCAGACAT-GTCTTACACT
20782246 AGCTCACAAT
Statistics
Matches: 107, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
43 2 0.02
44 16 0.15
45 15 0.14
46 52 0.49
47 12 0.11
48 10 0.09
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (44 bp):
TCGATGCATGTCCCAGACATGTCTTACACTGACACATCTCGAGG
Found at i:20787812 original size:19 final size:19
Alignment explanation
Indices: 20787790--20787826 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
20787780 TAATATATTC
*
20787790 ATAATATTTTTATATTTTT
1 ATAATATTTTTAAATTTTT
*
20787809 ATAATTTTTTTAAATTTT
1 ATAATATTTTTAAATTTT
20787827 AAAATTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATAATATTTTTAAATTTTT
Found at i:20805436 original size:26 final size:27
Alignment explanation
Indices: 20805380--20805451 Score: 76
Period size: 31 Copynumber: 2.5 Consensus size: 27
20805370 GTAATAAAGA
20805380 TTTTTTTTTAATTTAATATTTCATTGGAAT
1 TTTTTTTTTAATTTAATATTTCA---GAAT
20805410 TTTTTTTTCTAATTTAATATTT-A-AAT
1 TTTTTTTT-TAATTTAATATTTCAGAAT
20805436 TTTTTTAGTTTAATTT
1 TTTTTT--TTTAATTT
20805452 TGTGTTTAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
26 9 0.23
27 6 0.15
28 2 0.05
30 9 0.23
31 13 0.33
ACGTcount: A:0.26, C:0.03, G:0.04, T:0.67
Consensus pattern (27 bp):
TTTTTTTTTAATTTAATATTTCAGAAT
Found at i:20806016 original size:57 final size:56
Alignment explanation
Indices: 20805942--20806110 Score: 196
Period size: 57 Copynumber: 3.0 Consensus size: 56
20805932 CAAAATGGAC
* *
20805942 AAAAAAAAACATAGGTACCAAATTAAGAAAAAGTGTCAAGTTTAAGTACCAAATTGG
1 AAAAAAAAACTTAGGTACCAAATTAAGAAAAA-TGTCAAGTTTAAGTACCAAATTAG
* * * *
20805999 ATAAAAAAACTTAGGTACC-AATTTAGTAAATTATGTTAAGTTTAAGTACCAAATTAG
1 AAAAAAAAACTTAGGTACCAAATTAAG-AAA-AATGTCAAGTTTAAGTACCAAATTAG
** * * *
20806056 AAAAAAAAACTTAAATACCAAATTAAGAAAACATATCAAATTTAAATACCAAATT
1 AAAAAAAAACTTAGGTACCAAATTAAGAAAA-ATGTCAAGTTTAAGTACCAAATT
20806111 TTTATTATTT
Statistics
Matches: 93, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
56 6 0.06
57 80 0.86
58 7 0.08
ACGTcount: A:0.53, C:0.11, G:0.10, T:0.26
Consensus pattern (56 bp):
AAAAAAAAACTTAGGTACCAAATTAAGAAAAATGTCAAGTTTAAGTACCAAATTAG
Found at i:20806074 original size:26 final size:30
Alignment explanation
Indices: 20806040--20806110 Score: 87
Period size: 31 Copynumber: 2.5 Consensus size: 30
20806030 TATGTTAAGT
*
20806040 TTAAGTACCAAATT-AGAAAA-A-A-AAAC
1 TTAAATACCAAATTAAGAAAACATACAAAC
*
20806066 TTAAATACCAAATTAAGAAAACATATCAAAT
1 TTAAATACCAAATTAAGAAAACATA-CAAAC
20806097 TTAAATACCAAATT
1 TTAAATACCAAATT
20806111 TTTATTATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
26 13 0.34
27 6 0.16
28 1 0.03
29 1 0.03
31 17 0.45
ACGTcount: A:0.58, C:0.13, G:0.04, T:0.25
Consensus pattern (30 bp):
TTAAATACCAAATTAAGAAAACATACAAAC
Found at i:20813121 original size:30 final size:30
Alignment explanation
Indices: 20813063--20813121 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
20813053 ATTTTCAAGG
**
20813063 CTAGGGGCAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAATGGTCATTTTACCAAAGT
* *
20813093 CTAGGGTCAAAATGGTCTTTTTACCAAAG
1 CTAGGGGCAAAATGGTCATTTTACCAAAG
20813122 ATATGAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTACCAAAGT
Found at i:20813598 original size:46 final size:46
Alignment explanation
Indices: 20813465--20813681 Score: 189
Period size: 46 Copynumber: 4.7 Consensus size: 46
20813455 TGTGTGAGCT
* * *
20813465 AGTGTAAGACATGTCTGGGACATGCATCGACCATATTATGA-GAG-AC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-TATGA-GACGAGTGC
* *
20813511 AGTATAAGACCATGTCTAGGACATAGCATCGG--TATTGAGACGAGTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTA-TGAGACGAGTGC
* *
20813558 TAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGTAAG-CC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCCTATGAGACG--AGTGC
* * * *
20813605 AGTATAAGACATGTTTGGGACATGCATCGG-CTATGAGATGTGT-C
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTATGAGACGAGTGC
20813649 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
20813682 ACAAATATGC
Statistics
Matches: 140, Mismatches: 16, Indels: 29
0.76 0.09 0.16
Matches are distributed among these distances:
44 10 0.07
45 19 0.14
46 66 0.47
47 28 0.20
48 17 0.12
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTATGAGACGAGTGC
Found at i:20818478 original size:25 final size:26
Alignment explanation
Indices: 20818446--20818500 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
20818436 TTATTAAATT
*
20818446 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
20818471 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
20818496 A-ATAT
1 ATATAT
20818501 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:20818687 original size:44 final size:45
Alignment explanation
Indices: 20818638--20818732 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
20818628 TTACACCTCT
* *
20818638 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
20818682 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
20818727 ATTACA
1 ATTACA
20818733 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:20818732 original size:16 final size:16
Alignment explanation
Indices: 20818713--20818764 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
20818703 GATTTGCTAT
* *
20818713 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
20818729 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
20818745 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
20818761 TACA
1 TACA
20818765 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:20820424 original size:93 final size:93
Alignment explanation
Indices: 20820281--20820633 Score: 528
Period size: 93 Copynumber: 3.8 Consensus size: 93
20820271 GACGAGCGCT
* * *
20820281 AGTGTAAGA-CATGTCTAGGACATCATGCATCAGCCTTGAGACGTAAGCCAGTGTAAGACATGTC
1 AGTGTAAGACCATGTCTGGGACAT--GGCATC-GACTTGAGACGTAAGCCAGTGTAAGACATGTC
*
20820345 TAGGACATGCATCGGCTACGAGATGATAGTC
63 TGGGACATGCATCGGCTACGAGATGATAGTC
* * **
20820376 AGTGTAAGACCATATCTGGGACACGGCATCGACTTGAGATATAAGCCAGTGTAAGACATGTCTGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGACGTAAGCCAGTGTAAGACATGTCTGG
20820441 GACATGCATCGGCTACGAGATGATAGTC
66 GACATGCATCGGCTACGAGATGATAGTC
*
20820469 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAAACGTAAGCCAGTGTAAGACATGTCTGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGACGTAAGCCAGTGTAAGACATGTCTGG
* * *
20820534 GACATGCATTGGCTAAGAGATGATAGTT
66 GACATGCATCGGCTACGAGATGATAGTC
* * *
20820562 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTGAGCCAGTGTAAGACCGTGTCTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGACGTAAGCCAGTGTAAGA-CATGTCTG
20820627 GGACATG
65 GGACATG
20820634 GTATCGGTAC
Statistics
Matches: 236, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
93 197 0.83
94 19 0.08
95 9 0.04
96 11 0.05
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGACGTAAGCCAGTGTAAGACATGTCTGG
GACATGCATCGGCTACGAGATGATAGTC
Found at i:20820632 original size:47 final size:46
Alignment explanation
Indices: 20820281--20820639 Score: 345
Period size: 47 Copynumber: 7.7 Consensus size: 46
20820271 GACGAGCGCT
* * * *
20820281 AGTGTAAGA-CATGTCTAGGACATCATGCATCAGCCTTGAGACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACAT--GGCATC-GACTTGAGATGT-AGCC
* * * *
20820330 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAGATG-TAGCC
* * *
20820376 AGTGTAAGACCATATCTGGGACACGGCATCGACTTGAGATATAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGT-AGCC
* * *
20820423 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAGATG-TAGCC
* *
20820469 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAAACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGT-AGCC
* * * **
20820516 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCTAAGAGATGATAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAGATG-TAGCC
20820562 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGT-AGCC
* *
20820609 AGTGTAAGACCGTGTCTGGGACATGGTATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
20820640 GTACCTTACC
Statistics
Matches: 259, Mismatches: 36, Indels: 32
0.79 0.11 0.10
Matches are distributed among these distances:
45 18 0.07
46 83 0.32
47 112 0.43
48 23 0.09
49 23 0.09
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTAGCC
Found at i:20833946 original size:37 final size:37
Alignment explanation
Indices: 20833867--20833942 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
20833857 ACAACTTCAT
*
20833867 ATTGCTATCCAAAAACAAGAATCATCACATCAACACA
1 ATTGCTATCCAAAAACAAGAATCATCACATCAACAAA
*
20833904 ATTGCTATCCAAAAACAATAATCATCACATC-ACAAA
1 ATTGCTATCCAAAAACAAGAATCATCACATCAACAAA
20833940 ATT
1 ATT
20833943 TGCTCAACCA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
36 7 0.19
37 30 0.81
ACGTcount: A:0.49, C:0.25, G:0.04, T:0.22
Consensus pattern (37 bp):
ATTGCTATCCAAAAACAAGAATCATCACATCAACAAA
Found at i:20834348 original size:20 final size:20
Alignment explanation
Indices: 20834323--20834364 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
20834313 TCAAGCGACA
* *
20834323 AAAATTCAAGCAGAAGAGTC
1 AAAATTCAAACAGAAAAGTC
20834343 AAAATTCAAACAGAAAAGTC
1 AAAATTCAAACAGAAAAGTC
20834363 AA
1 AA
20834365 TATGCAATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (20 bp):
AAAATTCAAACAGAAAAGTC
Found at i:20836472 original size:11 final size:11
Alignment explanation
Indices: 20836456--20836496 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
20836446 CTACAGACAC
20836456 ATTCGACAATG
1 ATTCGACAATG
*
20836467 ATTCGATAATG
1 ATTCGACAATG
*
20836478 ATTCGACGATG
1 ATTCGACAATG
20836489 ATTCGACA
1 ATTCGACA
20836497 TTTGAAATCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (11 bp):
ATTCGACAATG
Found at i:20851326 original size:23 final size:23
Alignment explanation
Indices: 20851295--20851340 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
20851285 TGCTTGCCTT
*
20851295 TAAGTAATAAACATGCAAGAAAA
1 TAAGAAATAAACATGCAAGAAAA
*
20851318 TAAGAAATAAACATGTAAGAAAA
1 TAAGAAATAAACATGCAAGAAAA
20851341 GAAAATGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.63, C:0.07, G:0.13, T:0.17
Consensus pattern (23 bp):
TAAGAAATAAACATGCAAGAAAA
Found at i:20852854 original size:19 final size:19
Alignment explanation
Indices: 20852833--20852878 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
20852823 ATTAAACTAA
20852833 AAAAATAAA-AATCATTCC
1 AAAAATAAAGAATCATTCC
20852851 AAAAATAAAGAATCATTCC
1 AAAAATAAAGAATCATTCC
20852870 AAAAATAAA
1 AAAAATAAA
20852879 TTAAGTCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 9 0.33
19 18 0.67
ACGTcount: A:0.65, C:0.13, G:0.02, T:0.20
Consensus pattern (19 bp):
AAAAATAAAGAATCATTCC
Found at i:20857149 original size:19 final size:19
Alignment explanation
Indices: 20857125--20857169 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
20857115 TGAAACAGGG
* *
20857125 AAGGAATGAAGGAAA-AAGA
1 AAGGAAAGAAAGAAAGAA-A
20857144 AAGGAAAGAAAGAAAGAAA
1 AAGGAAAGAAAGAAAGAAA
20857163 AAGGAAA
1 AAGGAAA
20857170 AATTGGGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (19 bp):
AAGGAAAGAAAGAAAGAAA
Found at i:20861192 original size:25 final size:25
Alignment explanation
Indices: 20861158--20861353 Score: 313
Period size: 25 Copynumber: 7.8 Consensus size: 25
20861148 GACCTCAGCA
*
20861158 TGCTCTCTGATTATTAGCACGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
* *
20861183 TGCTCCCTGAATATTAGCACGCTAG
1 TGCTCTCTGAATATTAGCACGCCAG
*
20861208 TGCTATCTGAATATTAGCACGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
*
20861233 TGCTCTCTGAATATTAGCACGCTAG
1 TGCTCTCTGAATATTAGCACGCCAG
*
20861258 TGCTCTCTGATTATTAGCACGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
*
20861283 TGCTCTCTGAATATTAGCATGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
20861308 TGCTCTCTGAATATTAGCACGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
20861333 TGCTCTCTG-ATATTTAGCACG
1 TGCTCTCTGAATA-TTAGCACG
20861354 TTTGTTCTCT
Statistics
Matches: 157, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
24 3 0.02
25 154 0.98
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (25 bp):
TGCTCTCTGAATATTAGCACGCCAG
Found at i:20861373 original size:22 final size:21
Alignment explanation
Indices: 20861345--20861412 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 21
20861335 CTCTCTGATA
*
20861345 TTTAGCACGTTTGTTCTCTCTG
1 TTTAGCAC-TTTGTGCTCTCTG
* *
20861367 TTTAGCACATATGTGCTCTATG
1 TTTAGCAC-TTTGTGCTCTCTG
*
20861389 TATAGCACTTTAGTGCTCTCTG
1 TTTAGCACTTT-GTGCTCTCTG
20861411 TT
1 TT
20861413 CATTAGTACA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 2 0.05
22 35 0.95
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.46
Consensus pattern (21 bp):
TTTAGCACTTTGTGCTCTCTG
Found at i:20865995 original size:18 final size:18
Alignment explanation
Indices: 20865972--20866143 Score: 182
Period size: 18 Copynumber: 9.6 Consensus size: 18
20865962 AAAATAAAGG
* *
20865972 TACTGAATAACTGACTGC
1 TACTGAATAAATGACTGT
*
20865990 TACTGAATAAATGACTAT
1 TACTGAATAAATGACTGT
* * * *
20866008 TGCTGAATAACTGATTAT
1 TACTGAATAAATGACTGT
*
20866026 TACTGAATAATTGACTGT
1 TACTGAATAAATGACTGT
**
20866044 GGCTGAATAAATGACTGT
1 TACTGAATAAATGACTGT
* * *
20866062 TACTGAATAACTGATTAT
1 TACTGAATAAATGACTGT
*
20866080 TACTGAATAATTGACTGT
1 TACTGAATAAATGACTGT
*
20866098 GACTGAATAAATGACTGT
1 TACTGAATAAATGACTGT
* * *
20866116 TACTGAATAAATAATTAT
1 TACTGAATAAATGACTGT
20866134 TACTGAATAA
1 TACTGAATAA
20866144 CTGATTAATA
Statistics
Matches: 127, Mismatches: 27, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 127 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (18 bp):
TACTGAATAAATGACTGT
Found at i:20866021 original size:36 final size:36
Alignment explanation
Indices: 20865972--20866165 Score: 183
Period size: 36 Copynumber: 5.4 Consensus size: 36
20865962 AAAATAAAGG
*
20865972 TACTGAATAACTGACTGCTACTGAATAAATGACTAT
1 TACTGAATAACTGACTGTTACTGAATAAATGACTAT
* * * * *
20866008 TGCTGAATAACTGATTATTACTGAATAATTGACTGT
1 TACTGAATAACTGACTGTTACTGAATAAATGACTAT
** * * *
20866044 GGCTGAATAAATGACTGTTACTGAATAACTGATTAT
1 TACTGAATAACTGACTGTTACTGAATAAATGACTAT
* * *
20866080 TACTGAATAATTGACTGTGACTGAATAAATGACTGT
1 TACTGAATAACTGACTGTTACTGAATAAATGACTAT
* * * * * * *
20866116 TACTGAATAAATAATTATTACTGAATAACTGATTAA
1 TACTGAATAACTGACTGTTACTGAATAAATGACTAT
*
20866152 TACTG-ATGACTGAC
1 TACTGAATAACTGAC
20866166 CGATAATGAA
Statistics
Matches: 125, Mismatches: 33, Indels: 1
0.79 0.21 0.01
Matches are distributed among these distances:
35 5 0.04
36 120 0.96
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (36 bp):
TACTGAATAACTGACTGTTACTGAATAAATGACTAT
Found at i:20866041 original size:54 final size:54
Alignment explanation
Indices: 20865972--20866143 Score: 274
Period size: 54 Copynumber: 3.2 Consensus size: 54
20865962 AAAATAAAGG
* * *
20865972 TACTGAATAACTGACTGCT-ACTGAATAAATGACTATTGCTGAATAACTGATTAT
1 TACTGAATAATTGACTG-TGACTGAATAAATGACTGTTACTGAATAACTGATTAT
*
20866026 TACTGAATAATTGACTGTGGCTGAATAAATGACTGTTACTGAATAACTGATTAT
1 TACTGAATAATTGACTGTGACTGAATAAATGACTGTTACTGAATAACTGATTAT
* *
20866080 TACTGAATAATTGACTGTGACTGAATAAATGACTGTTACTGAATAAATAATTAT
1 TACTGAATAATTGACTGTGACTGAATAAATGACTGTTACTGAATAACTGATTAT
20866134 TACTGAATAA
1 TACTGAATAA
20866144 CTGATTAATA
Statistics
Matches: 110, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 1 0.01
54 109 0.99
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (54 bp):
TACTGAATAATTGACTGTGACTGAATAAATGACTGTTACTGAATAACTGATTAT
Found at i:20868868 original size:32 final size:32
Alignment explanation
Indices: 20868832--20868897 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
20868822 GGTGTTAATA
20868832 ATTTTTTCCCCCAATGGTAAAAATCCTAACGC
1 ATTTTTTCCCCCAATGGTAAAAATCCTAACGC
20868864 ATTTTTTCCCCCAATGGTAAAAATCCTAACGC
1 ATTTTTTCCCCCAATGGTAAAAATCCTAACGC
20868896 AT
1 AT
20868898 CCTAAACATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.32
Consensus pattern (32 bp):
ATTTTTTCCCCCAATGGTAAAAATCCTAACGC
Found at i:20874479 original size:9 final size:9
Alignment explanation
Indices: 20874467--20874491 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
20874457 TTATATATAT
20874467 ATATTTTAA
1 ATATTTTAA
20874476 ATATTTTAA
1 ATATTTTAA
20874485 ATATTTT
1 ATATTTT
20874492 TATAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
ATATTTTAA
Found at i:20883670 original size:116 final size:116
Alignment explanation
Indices: 20883466--20883696 Score: 462
Period size: 116 Copynumber: 2.0 Consensus size: 116
20883456 GGCTCCTTAA
20883466 TGGCTGATTTTATGTTTATTTCTAAAATTTTCCACTATCCTAAATGCCTATAAAAGGCTATGTAT
1 TGGCTGATTTTATGTTTATTTCTAAAATTTTCCACTATCCTAAATGCCTATAAAAGGCTATGTAT
20883531 TCTGGAGGATTAAACACACATTCGAATAATTTCTTATACTAAAATTCTGTG
66 TCTGGAGGATTAAACACACATTCGAATAATTTCTTATACTAAAATTCTGTG
20883582 TGGCTGATTTTATGTTTATTTCTAAAATTTTCCACTATCCTAAATGCCTATAAAAGGCTATGTAT
1 TGGCTGATTTTATGTTTATTTCTAAAATTTTCCACTATCCTAAATGCCTATAAAAGGCTATGTAT
20883647 TCTGGAGGATTAAACACACATTCGAATAATTTCTTATACTAAAATTCTGT
66 TCTGGAGGATTAAACACACATTCGAATAATTTCTTATACTAAAATTCTGT
20883697 TCATTTCAAA
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 115 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.40
Consensus pattern (116 bp):
TGGCTGATTTTATGTTTATTTCTAAAATTTTCCACTATCCTAAATGCCTATAAAAGGCTATGTAT
TCTGGAGGATTAAACACACATTCGAATAATTTCTTATACTAAAATTCTGTG
Found at i:20884504 original size:77 final size:76
Alignment explanation
Indices: 20884423--20884582 Score: 173
Period size: 77 Copynumber: 2.1 Consensus size: 76
20884413 AATTAAAGGT
* ** ** *
20884423 AAATAAAATTTATTTC-AGGATTGATTTTCTTCATTTAAC-GATTTATTCCAAATTTT-ATTTAT
1 AAATAAAATCTATTTCGA-GATTGATTCCCGCCATTCAACGGATTTATT--AAATTTTGATTTAT
*
20884485 TTCCAAAAATGAGTA
63 TGCCAAAAATGAG-A
* *
20884500 AAATAAAATCTGTTTCGAGATTGATTCCCGCCATTCAACGGATTTATTAAATTTTGATTTGTTGC
1 AAATAAAATCTATTTCGAGATTGATTCCCGCCATTCAACGGATTTATTAAATTTTGATTTATTGC
20884565 CAAAAATGAGA
66 CAAAAATGAGA
*
20884576 AATTAAA
1 AAATAAA
20884583 TTAAATAAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
76 14 0.20
77 47 0.67
78 9 0.13
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (76 bp):
AAATAAAATCTATTTCGAGATTGATTCCCGCCATTCAACGGATTTATTAAATTTTGATTTATTGC
CAAAAATGAGA
Found at i:20890954 original size:5 final size:5
Alignment explanation
Indices: 20890946--20890999 Score: 108
Period size: 5 Copynumber: 10.8 Consensus size: 5
20890936 AATAAATAAA
20890946 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
20890996 ATAT
1 ATAT
20891000 ACTTTAAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 49 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:20900315 original size:12 final size:12
Alignment explanation
Indices: 20900298--20900324 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
20900288 ATTTTTACGG
20900298 TTTAATAACTTT
1 TTTAATAACTTT
20900310 TTTAATAACTTT
1 TTTAATAACTTT
20900322 TTT
1 TTT
20900325 CATCTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTAATAACTTT
Found at i:20902229 original size:36 final size:36
Alignment explanation
Indices: 20902182--20902251 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
20902172 TTACTAAAGT
*
20902182 AAATTGCAATAGACTATTACAACTCATTGCCAACAC
1 AAATTGCAATAGACTATTACAACTCATTACCAACAC
20902218 AAATTGCAATAGACTATTACAACTCATTACCAAC
1 AAATTGCAATAGACTATTACAACTCATTACCAAC
20902252 TATTACAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (36 bp):
AAATTGCAATAGACTATTACAACTCATTACCAACAC
Found at i:20902404 original size:23 final size:24
Alignment explanation
Indices: 20902378--20902440 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
20902368 AACAAAATTG
*
20902378 AAAGCGGCAGTGAAATAACATTA-
1 AAAGCGGCAGTGAAACAACATTAC
* * *
20902401 AAAGCAGTAGTAAAACAACATTAC
1 AAAGCGGCAGTGAAACAACATTAC
20902425 AAA-CGGCAGTGAAACA
1 AAAGCGGCAGTGAAACA
20902441 GCACCAAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
23 29 0.91
24 3 0.09
ACGTcount: A:0.51, C:0.16, G:0.19, T:0.14
Consensus pattern (24 bp):
AAAGCGGCAGTGAAACAACATTAC
Found at i:20904903 original size:48 final size:47
Alignment explanation
Indices: 20904832--20904927 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 47
20904822 ATTAAGAAAG
*
20904832 AAAAGTGTTGAAACATGACTGGTTGAATATTTTTTTTTTTATTTTATT
1 AAAAGTGTTGAAACATGACTGGTTGAATA-TTTTTTTATTATTTTATT
20904880 AAAAGTGTTGAAACATGACTGGTTGAATATTTTTTTATTATTTTATT
1 AAAAGTGTTGAAACATGACTGGTTGAATATTTTTTTATTATTTTATT
20904927 A
1 A
20904928 TAAGATATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 18 0.38
48 29 0.62
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.50
Consensus pattern (47 bp):
AAAAGTGTTGAAACATGACTGGTTGAATATTTTTTTATTATTTTATT
Found at i:20910795 original size:50 final size:50
Alignment explanation
Indices: 20910720--20910896 Score: 248
Period size: 50 Copynumber: 3.5 Consensus size: 50
20910710 CCATGGAAAC
20910720 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * * *
20910770 AAGTGATAAGTAATAACTTTGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
20910820 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * *
20910870 CAACTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
20910897 CTGATCAGTG
Statistics
Matches: 111, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
50 87 0.78
51 24 0.22
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:20910912 original size:31 final size:31
Alignment explanation
Indices: 20910874--20911044 Score: 261
Period size: 31 Copynumber: 5.5 Consensus size: 31
20910864 AAATGACAAC
20910874 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
20910905 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* * *
20910936 TGAAAAGTAGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
20910967 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* **
20910998 TGAAAAATGGTAGCAGCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
20911029 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
20911045 TGACTACAAG
Statistics
Matches: 124, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 124 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:20911062 original size:7 final size:7
Alignment explanation
Indices: 20911050--20911078 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
20911040 AGCTTTGACT
20911050 ACAAGTG
1 ACAAGTG
20911057 ACAAGTG
1 ACAAGTG
20911064 ACAAGTG
1 ACAAGTG
20911071 ACAAGTG
1 ACAAGTG
20911078 A
1 A
20911079 TTTCTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:20911151 original size:47 final size:48
Alignment explanation
Indices: 20911082--20911207 Score: 166
Period size: 47 Copynumber: 2.7 Consensus size: 48
20911072 CAAGTGATTT
* *
20911082 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATG-CTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * *
20911129 CTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * *
20911177 C-GTGTAAGACCATAGCTGGGCTATGGCATCA
1 CTGTATAAGACCATATCTGGGATATGGCATCA
20911208 TTATGTAAAG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 66 0.96
48 3 0.04
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (48 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
Found at i:20915079 original size:9 final size:9
Alignment explanation
Indices: 20915065--20915166 Score: 70
Period size: 9 Copynumber: 11.2 Consensus size: 9
20915055 TCCTCATTCC
20915065 TTTTTATTA
1 TTTTTATTA
20915074 TTTTTATTA
1 TTTTTATTA
20915083 TTTTTATT-
1 TTTTTATTA
20915091 TTTATTATTA
1 TTT-TTATTA
20915101 -TTTTATT-
1 TTTTTATTA
* *
20915108 TTCCTTGTT-
1 TT-TTTATTA
20915117 TTATTT-TTA
1 TT-TTTATTA
20915126 TTTTTATTA
1 TTTTTATTA
**
20915135 GCTTTATTA
1 TTTTTATTA
*
20915144 TTGATTTATTGT
1 TT--TTTATT-A
20915156 TTTTTATTA
1 TTTTTATTA
20915165 TT
1 TT
20915167 ATTGCATGTT
Statistics
Matches: 74, Mismatches: 10, Indels: 18
0.73 0.10 0.18
Matches are distributed among these distances:
8 14 0.19
9 46 0.62
10 6 0.08
11 6 0.08
12 2 0.03
ACGTcount: A:0.19, C:0.03, G:0.04, T:0.75
Consensus pattern (9 bp):
TTTTTATTA
Found at i:20915089 original size:6 final size:6
Alignment explanation
Indices: 20915065--20915133 Score: 63
Period size: 6 Copynumber: 11.3 Consensus size: 6
20915055 TCCTCATTCC
* *
20915065 TTTTTA TTATTT- TTATTA TTTTTA TTTTTA TTATTA -TTTTA TTTTCCT-
1 TTTTTA TT-TTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT--TA
20915113 TGTTTTA TTTTTA TTTTTA TT
1 T-TTTTA TTTTTA TTTTTA TT
20915134 AGCTTTATTA
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
5 6 0.12
6 37 0.71
7 5 0.10
8 4 0.08
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:20915141 original size:46 final size:48
Alignment explanation
Indices: 20915061--20915150 Score: 123
Period size: 46 Copynumber: 1.9 Consensus size: 48
20915051 TACATCCTCA
* **
20915061 TTCCTTTTTATTATTTTTATTATTTTTATTTTTATTATT-ATTTTATT
1 TTCCTTGTTATTATTTTTATTATTTTTAGCTTTATTATTGATTTTATT
20915108 TTCCTTGTT-TTATTTTTATT-TTTATTAGCTTTATTATTGATTT
1 TTCCTTGTTATTATTTTTATTATTT-TTAGCTTTATTATTGATTT
20915151 ATTGTTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
45 3 0.08
46 23 0.61
47 12 0.32
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.73
Consensus pattern (48 bp):
TTCCTTGTTATTATTTTTATTATTTTTAGCTTTATTATTGATTTTATT
Found at i:20915169 original size:36 final size:35
Alignment explanation
Indices: 20915120--20915199 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 35
20915110 CCTTGTTTTA
* *
20915120 TTTTTATTTTTATTAGCTTTATTATTGATTTATTG-T
1 TTTTTATTATTATT-GC-ATATTATTGATTTATTGAT
* *
20915156 TTTTTATTATTATTGCATGTTATTGCTTTATTGAT
1 TTTTTATTATTATTGCATATTATTGATTTATTGAT
20915191 TTGTTTATT
1 TT-TTTATT
20915200 CTTGTTCAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
34 14 0.37
35 5 0.13
36 19 0.50
ACGTcount: A:0.19, C:0.04, G:0.10, T:0.68
Consensus pattern (35 bp):
TTTTTATTATTATTGCATATTATTGATTTATTGAT
Found at i:20918033 original size:50 final size:51
Alignment explanation
Indices: 20917914--20918045 Score: 167
Period size: 52 Copynumber: 2.6 Consensus size: 51
20917904 GTTGTGAGAA
* * **
20917914 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGG-TTTAGGT
* * *
20917966 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGGTTTAGGT
* *
20918016 CGCATGTGTAGTACTAAGTGTAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
20918046 TACATACCCT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
50 33 0.47
52 37 0.53
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGGTTTAGGT
Found at i:20918121 original size:51 final size:51
Alignment explanation
Indices: 20917914--20918196 Score: 171
Period size: 51 Copynumber: 5.5 Consensus size: 51
20917904 GTTGTGAGAA
* * * *
20917914 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAA-ATGGTTTTAGGT
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTG-TAAAAGATAGCTTT-GGT
* * * * ** * *
20917966 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGTTAGGT
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
* * * * *** **** * * *
20918016 CGCATGTGTAGTACTAAGTGTAGGCTACTATACATACCCTATAACTTCGAT
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
*
20918067 CACATGTGTGGTACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
* * * * *
20918118 CACAAGTGTGGTACTATGTGAAGGCCACTTTGTG-AATAATG-TAGCTTT-GA
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAA-AA-GATAGCTTTGGT
* * *
20918168 CTACAAGGGTGGTACTATGTGCAGGCCAC
1 C-ACATGTGTAGTACTATGTGCAGGCCAC
20918197 CGGGTATCCG
Statistics
Matches: 184, Mismatches: 42, Indels: 11
0.78 0.18 0.05
Matches are distributed among these distances:
50 40 0.22
51 110 0.60
52 34 0.18
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (51 bp):
CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
Found at i:20924974 original size:25 final size:26
Alignment explanation
Indices: 20924940--20924988 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
20924930 CCTCTGATTT
*
20924940 TTTTGAAATT-TCTTTTTGCTTTTTA
1 TTTTGAAATTGTCTTCTTGCTTTTTA
* *
20924965 TTTTGCAATTGTGTTCTTGCTTTT
1 TTTTGAAATTGTCTTCTTGCTTTT
20924989 GACTTGCTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 9 0.45
26 11 0.55
ACGTcount: A:0.12, C:0.10, G:0.12, T:0.65
Consensus pattern (26 bp):
TTTTGAAATTGTCTTCTTGCTTTTTA
Found at i:20931574 original size:20 final size:20
Alignment explanation
Indices: 20931549--20931597 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
20931539 TAATTTATTT
20931549 AAATATTAAAT-TAAAATTAA
1 AAATATTAAATATAAAATT-A
* *
20931569 AAATATAAAATATAATATTA
1 AAATATTAAATATAAAATTA
*
20931589 TAATATTAA
1 AAATATTAA
20931598 CAATTTAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATATTAAATATAAAATTA
Found at i:20934144 original size:34 final size:34
Alignment explanation
Indices: 20934103--20934185 Score: 116
Period size: 34 Copynumber: 2.4 Consensus size: 34
20934093 TTTATATTTT
20934103 TTTAATTAGA-ATTTTATAATAACAC-TTCTAACTA
1 TTTAATTAGATATTTT-T-ATAACACTTTCTAACTA
* *
20934137 TTTAATTAGATATGTTTATAACACTTTTTAACTA
1 TTTAATTAGATATTTTTATAACACTTTCTAACTA
20934171 TTTAATTAGATATTT
1 TTTAATTAGATATTT
20934186 AGAGTAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
33 7 0.16
34 33 0.75
35 4 0.09
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.49
Consensus pattern (34 bp):
TTTAATTAGATATTTTTATAACACTTTCTAACTA
Found at i:20936958 original size:15 final size:15
Alignment explanation
Indices: 20936938--20936968 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
20936928 GATCGTCATT
20936938 ATCATCTTCTTCTTC
1 ATCATCTTCTTCTTC
20936953 ATCATCTTCTTCTTC
1 ATCATCTTCTTCTTC
20936968 A
1 A
20936969 ATGATTTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.52
Consensus pattern (15 bp):
ATCATCTTCTTCTTC
Found at i:20945617 original size:14 final size:14
Alignment explanation
Indices: 20945587--20945624 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
20945577 AAAAAAATAG
*
20945587 TTTT-TTTTATTTC
1 TTTTATTTTATTTA
*
20945600 TTTTATTTTCTTTA
1 TTTTATTTTATTTA
20945614 TTTTATTTTAT
1 TTTTATTTTAT
20945625 AGTATGCCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTATTTTATTTA
Found at i:20946113 original size:14 final size:15
Alignment explanation
Indices: 20946091--20946128 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
20946081 AAGAAGAATG
20946091 AAAAA-AAATAT-TA
1 AAAAAGAAATATATA
20946104 AAAAAGAAATATATA
1 AAAAAGAAATATATA
20946119 AAAATAGAAA
1 AAAA-AGAAA
20946129 ATAATACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.23
14 6 0.27
15 6 0.27
16 5 0.23
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (15 bp):
AAAAAGAAATATATA
Found at i:20947057 original size:12 final size:12
Alignment explanation
Indices: 20947039--20947073 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
20947029 ATTTCAGGTA
20947039 TAATTTTTTTTT
1 TAATTTTTTTTT
* *
20947051 TAGTTTTTATTT
1 TAATTTTTTTTT
20947063 TAATTTTTTTT
1 TAATTTTTTTT
20947074 AAAAATATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (12 bp):
TAATTTTTTTTT
Found at i:20949928 original size:20 final size:20
Alignment explanation
Indices: 20949884--20949972 Score: 67
Period size: 20 Copynumber: 4.5 Consensus size: 20
20949874 GAGGCACCGT
20949884 AGTGCAAAT-AAAGGCA-CGA
1 AGTGC-AATCAAAGGCATCGA
* *
20949903 TTGTGCAATCAGAGGCATCGA
1 -AGTGCAATCAAAGGCATCGA
* * *
20949924 AGTGCAAACAAAGACACCGA
1 AGTGCAATCAAAGGCATCGA
* *
20949944 AGTGTAAGCACAA-GCATCGA
1 AGTGCAATCA-AAGGCATCGA
20949964 AGTGCAATC
1 AGTGCAATC
20949973 TCGTACAAGC
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
19 3 0.06
20 45 0.85
21 5 0.09
ACGTcount: A:0.40, C:0.20, G:0.25, T:0.15
Consensus pattern (20 bp):
AGTGCAATCAAAGGCATCGA
Found at i:20957129 original size:16 final size:18
Alignment explanation
Indices: 20957055--20957132 Score: 54
Period size: 19 Copynumber: 4.3 Consensus size: 18
20957045 AATATAAAAG
* *
20957055 AAATTATAAAAATTGCAAA
1 AAATAATAAAATTTG-AAA
* *
20957074 AAAAAATTAAATTAT-ACAA
1 AAATAATAAAATT-TGA-AA
20957093 AAATTAATAAAATTTGAAA
1 AAA-TAATAAAATTTGAAA
*
20957112 AAATAA-AAAA-TTGTAA
1 AAATAATAAAATTTGAAA
20957128 AAATA
1 AAATA
20957133 TTTAAAAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
16 10 0.21
17 4 0.08
18 4 0.08
19 20 0.42
20 10 0.21
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.27
Consensus pattern (18 bp):
AAATAATAAAATTTGAAA
Found at i:20960051 original size:22 final size:22
Alignment explanation
Indices: 20960026--20960069 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
20960016 ACAATCAACT
20960026 TGTACAGATAAGGCAGCGTCAA
1 TGTACAGATAAGGCAGCGTCAA
*
20960048 TGTACAGATATGGCAGCGTCAA
1 TGTACAGATAAGGCAGCGTCAA
20960070 GTTTCTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.20
Consensus pattern (22 bp):
TGTACAGATAAGGCAGCGTCAA
Found at i:20964517 original size:38 final size:38
Alignment explanation
Indices: 20964474--20964588 Score: 230
Period size: 38 Copynumber: 3.0 Consensus size: 38
20964464 ATTAATTGTT
20964474 AGTACAAATGTTACGTTTGATGAATCTTCCATGTTTCG
1 AGTACAAATGTTACGTTTGATGAATCTTCCATGTTTCG
20964512 AGTACAAATGTTACGTTTGATGAATCTTCCATGTTTCG
1 AGTACAAATGTTACGTTTGATGAATCTTCCATGTTTCG
20964550 AGTACAAATGTTACGTTTGATGAATCTTCCATGTTTCG
1 AGTACAAATGTTACGTTTGATGAATCTTCCATGTTTCG
20964588 A
1 A
20964589 TAAAAAAATG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 77 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (38 bp):
AGTACAAATGTTACGTTTGATGAATCTTCCATGTTTCG
Found at i:20965896 original size:46 final size:46
Alignment explanation
Indices: 20965825--20965965 Score: 137
Period size: 46 Copynumber: 3.0 Consensus size: 46
20965815 ATGACTTTTG
* * *
20965825 GGTCAC-TTGTGTGAGCTAGTATAAGATGTGTCTGGGACATGCATC
1 GGTCACATTATGTGAGCTAGTGTAAGATATGTCTGGGACATGCATC
* *
20965870 GGTCACATTATGTGAGCTAGTGTAAGACCATGTTTGGGACATAGCATC
1 GGTCACATTATGTGAGCTAGTGTAAGA-TATGTCTGGGACAT-GCATC
* * *
20965918 GG---CATTAAGACGAGTGCTAGTGTAAGATATGTCTAGGACATGCATC
1 GGTCACATTATG-TGA--GCTAGTGTAAGATATGTCTGGGACATGCATC
20965964 GG
1 GG
20965966 CCTCGAGATG
Statistics
Matches: 80, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
45 12 0.15
46 27 0.34
47 22 0.28
48 19 0.24
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (46 bp):
GGTCACATTATGTGAGCTAGTGTAAGATATGTCTGGGACATGCATC
Found at i:20982592 original size:13 final size:11
Alignment explanation
Indices: 20982556--20982586 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
20982546 CTGCCCGTAT
20982556 TAATTTTTATA
1 TAATTTTTATA
*
20982567 TTATTTTTATA
1 TAATTTTTATA
20982578 TAATTTTTA
1 TAATTTTTA
20982587 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:20983922 original size:23 final size:21
Alignment explanation
Indices: 20983881--20983943 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
20983871 TTTAAGAAGG
* * *
20983881 TAAAGAAAAATAAATAAATAAA
1 TAAATAAAAAGAAATAAA-ATA
*
20983903 TAAATAAAAAGAAATAAAATG
1 TAAATAAAAAGAAATAAAATA
20983924 TACAATAAAAAGGAAATAAA
1 TA-AATAAAAA-GAAATAAA
20983944 CCAATTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 3 0.09
22 24 0.69
23 8 0.23
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.17
Consensus pattern (21 bp):
TAAATAAAAAGAAATAAAATA
Found at i:20985412 original size:44 final size:44
Alignment explanation
Indices: 20985326--20986139 Score: 370
Period size: 44 Copynumber: 17.9 Consensus size: 44
20985316 GGAATTGTTT
* *
20985326 CTTCGATCTACTCCACTGCAATTTCAGGGAGATAAGACTTGTAG
1 CTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGATTTGTAG
* * * *
20985370 CTTCAATCTGCTCCGCTGCAATTTCAGGGAGATGAGATTTGTAT
1 CTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGATTTGTAG
* *
20985414 CTTCAATCTATTCCACTGCAACTTCAGGGAGATAAGATTTG--G
1 CTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGATTTGTAG
* * *
20985456 GTTGAATCTACTCCACTGC-ATCTTCAAGGAGATAAGATTTGTAACTTGTAG
1 CTTCAATCTACTCCACTGCAAT-TTCAGGGAGATAAGA----T---TTGTAG
* * ** * * * ** *
20985507 TTTTAATCTGTTCCACTGCAACTTCAGAGAAATAAGATTCACTAT
1 CTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGATT-TGTAG
* ** * * * *
20985552 CTTTAATCTGTTCTACTGTAACTTT-AGGGAGATAAGACTTGTAA
1 CTTCAATCTACTCCACTGCAA-TTTCAGGGAGATAAGATTTGTAG
* * * * * * *
20985596 CTTCAACCTGCCCCACTGCAACTTC-GTAGAGATAAAATTTGTTAT
1 CTTCAATCTACTCCACTGCAATTTCAG-GGAGATAAGATTTG-TAG
* * * * *
20985641 CTTCGATTTGCTCCACTGC-ATCTTTAGGGAGATAAGATTTGTAA
1 CTTCAATCTACTCCACTGCAAT-TTCAGGGAGATAAGATTTGTAG
* * * *
20985685 CTTCAATATGCTCTACTGCAACTTCAGGGAGATAAGATTTGTAATTTGTAG
1 CTTCAATCTACTCCACTGCAATTTCAGGGAGAT-A-A---G--ATTTGTAG
* * * * * * *
20985736 CTTTAATCTATTCCACTGCAACTTCAGGGAAATAGGATTCGCTAT
1 CTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGATTTG-TAG
* * * * *
20985781 CTTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAA
1 CTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGATTTGTAG
* * * *
20985825 CTTCCA-CATGCTCCACTGCAACTTT-AAGGAGATAAGGTTTATAATTTGTAT
1 CTTCAATC-TACTCCACTGCAA-TTTCAGGGAGATAA-G------ATTTGTAG
* * ** * * * * *
20985876 TTTTAATCTGTTTCACTACAACTTCAGGGAAATAAGATTTGCTAT
1 CTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGATTTG-TAG
* * * * * * * *
20985921 CTTTAGTTTACTCCACTGTAACTTCAGGGAGAAAAGACTTGTAA
1 CTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGATTTGTAG
* * * * *
20985965 CTTCAACCTTCTCCATTGCAACTTT-AGGGAGATAAGGTTTATAG
1 CTTCAATCTACTCCACTGCAA-TTTCAGGGAGATAAGATTTGTAG
* * * * *
20986009 CTTTAATCT-GTCCTACTGCAACTTCAGAGAGATAAGATTTGCTAT
1 CTTCAATCTACTCC-ACTGCAATTTCAGGGAGATAAGATTTG-TAG
* * *** * * *
20986054 CTTCAATCTTACTCCATTGTAACCCCCGGGAGATAAGACTTGTGG
1 CTTCAATC-TACTCCACTGCAATTTCAGGGAGATAAGATTTGTAG
* *
20986099 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
1 CTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGATTTG
20986140 CCATTATGAT
Statistics
Matches: 576, Mismatches: 149, Indels: 90
0.71 0.18 0.11
Matches are distributed among these distances:
41 1 0.00
42 30 0.05
43 9 0.02
44 249 0.43
45 157 0.27
46 27 0.05
47 4 0.01
49 4 0.01
50 4 0.01
51 89 0.15
52 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (44 bp):
CTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGATTTGTAG
Found at i:20985752 original size:140 final size:139
Alignment explanation
Indices: 20985608--20986139 Score: 553
Period size: 140 Copynumber: 3.8 Consensus size: 139
20985598 TCAACCTGCC
* * * * * * *
20985608 CCACTGCAACTTC-GTAGAGATAAAATTTGTTATC-TTCGATTTGCTCCACTGCATCTTTAGGGA
1 CCACTGCAACTTCAG-AGAAATAAGATTTGCTATCTTTAG-TTTACTCCACTGCAACTTCAGGGA
* * *
20985671 GATAAGATTTGTAACTTCAATATGCTCTACTGCAACTTCAGGGAGATAAGATTTGTAATTTGTAG
64 GATAAGACTTGTAACTTCAACATGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTGTAG
20985736 CTTTAATCTATT
129 CTTTAATCT-TT
* * * *
20985748 CCACTGCAACTTCAGGGAAATAGGATTCGCTATCTTTAGTCTACTCCACTGCAACTTCAGGGAGA
1 CCACTGCAACTTCAGAGAAATAAGATTTGCTATCTTTAGTTTACTCCACTGCAACTTCAGGGAGA
* * * * * **
20985813 TAAGACTTGTAACTTCCACATGCTCCACTGCAACTTTAAGGAGATAAGGTTTATAATTTGTATTT
66 TAAGACTTGTAACTTCAACATGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTGTAGCT
20985878 TTAATCTGTT
131 TTAATCT-TT
* * * *
20985888 TCACTACAACTTCAGGGAAATAAGATTTGCTATCTTTAGTTTACTCCACTGTAACTTCAGGGAGA
1 CCACTGCAACTTCAGAGAAATAAGATTTGCTATCTTTAGTTTACTCCACTGCAACTTCAGGGAGA
* * * * * *
20985953 AAAGACTTGTAACTTCAACCTTCTCCATTGCAACTTTAGGGAGATAAG----G---TTTATAGCT
66 TAAGACTTGTAACTTCAACATGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTGTAGCT
*
20986011 TTAATCTGT
131 TTAATCTTT
* * * * * ** *
20986020 CCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTTACTCCATTGTAACCCCCGGGA
1 CC-ACTGCAACTTCAGAGAAATAAGATTTGCTATCTTTAGT-TTACTCCACTGCAACTTCAGGGA
**
20986085 GATAAGACTTGTGGCTTCAATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTTG
64 GATAAGACTTGTAACTTCAA-CATGCTCCACTGCAACTTCAGGGAGATAAGATTTG
20986140 CCATTATGAT
Statistics
Matches: 328, Mismatches: 55, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
132 2 0.01
133 46 0.14
134 61 0.19
135 1 0.00
138 1 0.00
140 213 0.65
141 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (139 bp):
CCACTGCAACTTCAGAGAAATAAGATTTGCTATCTTTAGTTTACTCCACTGCAACTTCAGGGAGA
TAAGACTTGTAACTTCAACATGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTGTAGCT
TTAATCTTT
Found at i:20985752 original size:229 final size:226
Alignment explanation
Indices: 20985331--20986139 Score: 670
Period size: 229 Copynumber: 3.5 Consensus size: 226
20985321 TGTTTCTTCG
* * * * *
20985331 ATCTACTCCACTGCAATTTCAGGGAGATAAGACTTGTAGCTTCAATCTGCTCCGCTGCAATTTCA
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCA
* * * * ** *
20985396 GGGAGATGAGATTTGTATCTTCAATCTATTCCACTGCAACTTCAGGGAGATAAGATTTGGGTTGA
66 GAGAGATAAAATTTGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGACTTCA
* * * *
20985461 ATCTACTCCACTGCATCTTCAAGGAGATAAGATTTGTAACTTGTAGTTTTAATCTGTTCCACTGC
131 ATATACTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATTCCACTGC
20985526 AACTTCAGAGAAATAAGATTCACTATCTTTA
196 AACTTCAGAGAAATAAGATTCACTATCTTTA
** * * * *
20985557 ATCTGTTCTACTGTAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGCCCCACTGCAACTTC-
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCA
* * * * *
20985621 GTAGAGATAAAATTTGTTATCTTCGATTTGCTCCACTGCATCTTTAGGGAGATAAGATTTGTAAC
66 G-AGAGATAAAATTTG-TATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG--AC
* * * *
20985686 TTCAATATGCTCTACTGCAACTTCAGGGAGATAAGATTTGTAATTTGTAGCTTTAATCTATTCCA
127 TTCAATATACTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATTCCA
* * *
20985751 CTGCAACTTCAGGGAAATAGGATTCGCTATCTTTA
192 CTGCAACTTCAGAGAAATAAGATTCACTATCTTTA
* * * *
20985786 GTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCCACATGCTCCACTGCAACTTTA
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCA
* * ** * * *
20985851 -AGGAGATAAGGTTTATAATTTGTATTTTTAATCTGTTTCACTACAACTTCAGGGAAATAAGATT
66 GA-GAGAT-A-----A-AATTTGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
* * * * * * * *
20985915 TGCTATCTTTAGTTTACTCCACTGTAACTTCAGGGAGA-AA-A---G--ACTTGTAACTTCAACC
123 TG--A-CTTCAATATACTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATC
* * * * * * *
20985973 T-TCTCCATTGCAACTTTAGGGAGATAAGGTTTA-TAGCTTTA
185 TAT-TCCACTGCAACTTCAGAGAAATAAGATTCACTATCTTTA
* * * * * * * * *
20986014 ATCT-GTCCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTTACTCCATTGTAACC
1 ATCTACTCC-ACTGCAACTTCAGGGAGATAAGACTTG-TAACTTCAA-CCTGCTCCACTGCAACT
* * * * * ** *
20986078 CCCGGGAGATAAGACTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
63 TCAGAGAGATAAAATTTGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG
20986140 CCATTATGAT
Statistics
Matches: 465, Mismatches: 99, Indels: 41
0.77 0.16 0.07
Matches are distributed among these distances:
223 40 0.09
224 1 0.00
225 1 0.00
226 64 0.14
227 41 0.09
228 37 0.08
229 191 0.41
230 18 0.04
231 1 0.00
234 1 0.00
235 38 0.08
236 32 0.07
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (226 bp):
ATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCA
GAGAGATAAAATTTGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGACTTCA
ATATACTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATTCCACTGC
AACTTCAGAGAAATAAGATTCACTATCTTTA
Found at i:20985757 original size:51 final size:51
Alignment explanation
Indices: 20985699--20985916 Score: 151
Period size: 51 Copynumber: 4.5 Consensus size: 51
20985689 AATATGCTCT
*
20985699 ACTGCAACTTCAGGGAGATAAGATTTGTAATTTGTAGCTTTAATCTATTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAATTTGTATCTTTAATCTATTCC
* * * *
20985750 ACTGCAACTTCAGGGAAAT-AG----G--ATTCGCTATCTTTAGTCTACTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAATTTG-TATCTTTAATCTATTCC
* * **
20985795 ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCCA-C----ATGC---TCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAATTTGTATCTTTAAT-CTATTCC
* * * * * * *
20985839 ACTGCAACTTTAAGGAGATAAGGTTTATAATTTGTATTTTTAATCTGTTTC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAATTTGTATCTTTAATCTATTCC
* *
20985890 ACTACAACTTCAGGGAAATAAGATTTG
1 ACTGCAACTTCAGGGAGATAAGATTTG
20985917 CTATCTTTAG
Statistics
Matches: 123, Mismatches: 27, Indels: 34
0.67 0.15 0.18
Matches are distributed among these distances:
44 35 0.28
45 32 0.26
46 4 0.03
47 1 0.01
48 1 0.01
49 2 0.02
50 4 0.03
51 42 0.34
52 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (51 bp):
ACTGCAACTTCAGGGAGATAAGATTTGTAATTTGTATCTTTAATCTATTCC
Found at i:20986131 original size:90 final size:89
Alignment explanation
Indices: 20985931--20986140 Score: 244
Period size: 90 Copynumber: 2.4 Consensus size: 89
20985921 CTTTAGTTTA
* * * ***
20985931 CTCCACTGTAACTTCAGGGAGAAAAGACTTG-TAACTTCAACCTTCTCCATTGCAACTTTAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGCTAACTTCAACCTTCTCCATTGCAACCCCAGGGA
** *
20985995 GATAAGGTTTATAGCTTTAATCTG
66 GATAAGACTTATAGCTTCAATCTG
* * * * *
20986019 -TCCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTTACTCCATTGTAACCCCCGG
1 CTCC-ACTGCAACTTCAGGGAGATAAGATTTGCTAACTTCAACCTT-CTCCATTGCAACCCCAGG
* *
20986083 GAGATAAGACTTGTGGCTTCAATCTG
64 GAGATAAGACTTATAGCTTCAATCTG
20986109 CTCCACTGCAACTTCAGGGAGATAAGATTTGC
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGC
20986141 CATTATGATT
Statistics
Matches: 101, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
87 3 0.03
88 23 0.23
89 11 0.11
90 61 0.60
91 3 0.03
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (89 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGCTAACTTCAACCTTCTCCATTGCAACCCCAGGGA
GATAAGACTTATAGCTTCAATCTG
Found at i:20986489 original size:34 final size:34
Alignment explanation
Indices: 20986441--20986509 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
20986431 GCCTTCTTGT
20986441 TCAGCCAGTATCTTTGACAGAAAACCCGAAGAAA
1 TCAGCCAGTATCTTTGACAGAAAACCCGAAGAAA
*
20986475 TCAGCCAGTTTCTTTGACAGAAAACCCGAAGAAA
1 TCAGCCAGTATCTTTGACAGAAAACCCGAAGAAA
20986509 T
1 T
20986510 AATCACAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.20
Consensus pattern (34 bp):
TCAGCCAGTATCTTTGACAGAAAACCCGAAGAAA
Done.